The xform has to be linear in the xfm format. The m3z cannot be used.
doug
> script/subjects.id <http://subjects.id>` --xform talairach.m3z
On 03/07/2013 06:44 PM, Xiaowei Song wrote:
> Thanks for your help.
>
> My command line is
> make_average_subject --out avgGrp139 --subjects `cat
>
>
> On Thu, Mar 7, 2013 at 6:15 PM, Bruce Fischl
> <fischl@nmr.mgh.harvard.edu <mailto:fischl@nmr.mgh.harvard.edu>> wrote:> <fischl@nmr.mgh.harvard.edu <mailto:fischl@nmr.mgh.harvard.edu>>
>
> what was your command line?
>
> On Thu, 7 Mar 2013, Xiaowei Song wrote:
>
> Sorry, I did not make it clear.
> In make_average_volume.log, the error message is:
>
> 1/139 1173622 aseg Sat Feb 23 02:26:02 EST 2013
> mri_vol2vol --mov /data/lis9/fs/x/1173622/mri/aseg.mgz --targ
> /usr/local/freesurfer/average/mni305.cor.mgz --xfm
> /data/lis9/fs/x/1173622/mri/transforms/talairach.m3z --o
> /data/lis9/fs/x/avgGrp139/tmp/make_average_vol-tmp-55832/seg-1173622.mgh
> --interp nearest
> ERROR: /data/lis9/fs/x/1173622/mri/transforms/talairach.m3z
> does not start
> as 'MNI Transform File'/spin1/users/lis9/fs/dcm.mprage.mgz
> ERROR: mri_vol2vol failed.
>
>
> On Thu, Mar 7, 2013 at 5:49 PM, Bruce Fischl
> wrote:
> sorry, I don't understand. What was the error? I don't
> see one
> in this email. Can you send us the actual screen output?
>
> cheers
> Bruce
> On Thu, 7 Mar 2013, Xiaowei Song wrote:
>
> This error may come from regio_read_mincxfm function
> in registerio.c.Does
> this mean something wrong in recon-all?
>
> I forgot to mention that FreeSurfer version is
> freesurfer-Linux-centos4_x86_64-stable-pub-v5.1.0
>
>
> On Thu, Mar 7, 2013 at 5:34 PM, Xiaowei Song
> <dawnwei.song@gmail.com
> _______________________________________________> <mailto:dawnwei.song@gmail.com>> wrote:
> Hi all,
>
> Did you encounter the error message talairach.m3z
> does not start as
> 'MNI Transform File' when making average of
> subjects?
>
> I checked all the recon-all.log file and did not
> find error, but when
> running make_average_subject after recon-all, then
> this error shoot.
>
> To repeat the error message, I tried the following
> command which is
> called by make_average_subject and found all my
> subjects shoot this
> error.
>
> mri_vol2vol --mov 1173622/mri/aseg.mgz --targ
> /usr/local/freesurfer/average/mni305.cor.mgz --xfm
> 1173622/mri/transforms/talairach.m3z --o
> /tmp/make_average_vol-tmp-164320_seg-1173622.mgh
> --interp nearest
>
> I found another same question asked before,
> butnoanswer.
> https://mail.nmr.mgh.harvard.edu/pipermail//freesurfer/2012-May/0
> 24
> 064.html
>
> Any hint or help will be appreciated. Thank you.
>
> --
> Xiaowei Song
>
>
>
>
> --
> Xiaowei Song
>
>
>
>
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> --
> Xiaowei Song
>
>
>
>
> --
> Xiaowei Song
>
>
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--
Douglas N. Greve, Ph.D.
MGH-NMR Center
greve@nmr.mgh.harvard.edu
Phone Number: 617-724-2358
Fax: 617-726-7422
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